Back to structures

SRR1747065_scaffold_28_prodigal-single.1__X__X__00028

Bact-Vir

SRR1747065_scaffold_28_prodigal-single.1__X__X__00028

Identity

Kingdom:
phage

Quality

64.3 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 medium residues 1-133_897-926
PDB
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2gysA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 33.0 4.41e-01 71.2% 94.2%
3cddA01 2.30.300.10 Mainly Beta › Roll › Phage tail proteins - horseshoe like beta roll fold › Baseplate protein-like domain - beta roll fold 0.61 56.0 5.42e-01 97.5% 98.4%
1qz8A01 2.40.10.250 Mainly Beta › Beta Barrel › Thrombin, subunit H › Replicase NSP9 0.61 34.0 4.08e-01 76.7% 81.0%
1wruA01 2.30.300.10 Mainly Beta › Roll › Phage tail proteins - horseshoe like beta roll fold › Baseplate protein-like domain - beta roll fold 0.60 56.0 5.46e-01 98.2% 100.0%
2rdeA02 2.40.10.220 Mainly Beta › Beta Barrel › Thrombin, subunit H › predicted glycosyltransferase like domains 0.59 37.0 4.36e-01 90.8% 91.9%
4rt0A00 2.40.10.220 Mainly Beta › Beta Barrel › Thrombin, subunit H › predicted glycosyltransferase like domains 0.59 36.0 4.27e-01 93.3% 90.8%
4p02A03 2.40.10.220 Mainly Beta › Beta Barrel › Thrombin, subunit H › predicted glycosyltransferase like domains 0.56 38.0 4.35e-01 93.3% 92.6%
3d37B01 2.30.300.10 Mainly Beta › Roll › Phage tail proteins - horseshoe like beta roll fold › Baseplate protein-like domain - beta roll fold 0.55 51.0 5.04e-01 98.8% 99.4%
2p5zX01 2.30.110.50 Mainly Beta › Roll › Pnp Oxidase; Chain A › 0.54 47.0 4.73e-01 93.3% 98.8%
1rz1A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.51 40.0 4.18e-01 91.4% 88.2%
2p4bB02 3.30.200.100 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › MucB/RseB, C-terminal domain 0.51 27.0 3.42e-01 77.3% 85.7%
3fgeA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.50 43.0 4.27e-01 90.2% 90.1%
ECOD (27)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4031285 1.1.13.64 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › TT1_Tal 0.82 46.0 6.09e-01 72.4% 100.0%
4883825 1.1.13.20 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Prophage_tailD1 0.81 46.0 6.16e-01 73.6% 100.0%
184471 1.1.13.26 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › GpP-like_1st 0.80 43.0 5.84e-01 74.2% 100.0%
3943172 1.1.13.0 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.79 48.0 6.10e-01 77.3% 99.0%
184486 1.1.13.26 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › GpP-like_1st 0.79 40.0 5.64e-01 75.5% 100.0%
3977382 1.1.13.0 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.76 45.0 5.77e-01 73.6% 100.0%
4888819 1.1.13.10 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage-tail_1 0.73 48.0 5.78e-01 76.7% 98.2%
4608778 1.1.7.107 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › PF25965 0.73 40.0 4.61e-01 78.5% 72.5%
5002750 1.1.13.0 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.72 46.0 5.72e-01 74.8% 100.0%
4319057 1.1.5.25 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.65 41.0 4.82e-01 94.5% 88.7%
3256920 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.64 39.0 4.35e-01 79.1% 76.8%
3059162 1.1.13.30 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › E217_GP41 0.63 47.0 5.31e-01 79.1% 100.0%
1871771 1.1.5.43 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › MrkH_YcgR_like 0.63 34.0 3.97e-01 76.1% 73.9%
1914511 1.1.5.25 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.62 40.0 4.49e-01 95.1% 82.7%
4036849 1.1.5.25 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.62 42.0 4.62e-01 95.1% 84.2%
2137681 1.1.5.25 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.62 38.0 4.56e-01 91.4% 91.7%
3968097 1.1.5.25 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.62 40.0 4.67e-01 93.9% 95.5%
4260084 1.1.5.25 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.60 40.0 4.52e-01 95.7% 90.0%
3187444 1.1.7.81 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › SEN1_barrel 0.60 39.0 4.54e-01 79.8% 92.2%
3966494 1.1.5.25 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.59 37.0 4.31e-01 92.0% 89.1%
4057590 1.1.5.86 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZN3 0.58 42.0 4.47e-01 96.3% 85.7%
77 1.1.5.25 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.58 37.0 4.31e-01 90.8% 92.7%
4538400 1.1.5.25 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.57 39.0 4.31e-01 93.9% 86.9%
3941539 1.1.13.40 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_min_tail 0.57 37.0 4.46e-01 71.8% 100.0%
3616864 221.1.2.0 a+b two layers › beta-Grasp › Ubiquitin-related › Alpha-L RNA-binding motif 0.54 27.0 3.28e-01 76.7% 72.4%
3933872 221.1.2.16 a+b two layers › beta-Grasp › Ubiquitin-related › Alpha-L RNA-binding motif › MTRES1_C 0.53 26.0 3.25e-01 86.5% 75.0%
4482805 1.1.5.10 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.51 46.0 4.31e-01 96.9% 92.3%
D2 medium residues 297-314_860-896
PDB
D3 medium residues 433-553
PDB
Domain cluster: representative
CATH (28)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3ne5C02 2.40.30.170 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Efflux pump adaptor protein, beta barrel domain 0.64 46.0 5.01e-01 75.2% 95.1%
2d9rA00 2.40.30.100 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › AF2212/PG0164-like 0.64 43.0 5.03e-01 73.6% 98.8%
3gwqA01 2.40.37.20 Mainly Beta › Beta Barrel › Lyase, Ornithine Decarboxylase; Chain A, domain 1 › D-serine dehydratase-like domain 0.62 45.0 4.04e-01 76.9% 66.7%
4wz9A01 2.60.40.1730 Mainly Beta › Sandwich › Immunoglobulin-like › tricorn interacting facor f3 domain 0.59 45.0 3.73e-01 81.0% 55.1%
3zugB02 2.40.30.30 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Riboflavin kinase-like 0.58 40.0 3.87e-01 71.1% 66.9%
1o7dC02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.58 36.0 4.06e-01 73.6% 84.3%
2ed6A01 2.60.40.2770 Mainly Beta › Sandwich › Immunoglobulin-like › WSSV envelope protein-like 0.58 44.0 4.08e-01 81.0% 99.4%
3esmA00 2.60.40.2230 Mainly Beta › Sandwich › Immunoglobulin-like › Uncharacterised protein YcnI-like PF07987, DUF1775 0.57 38.0 3.71e-01 79.3% 60.1%
1p7hL02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 41.0 4.37e-01 76.0% 86.9%
4rdlA02 2.40.30.120 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Positive stranded ssRNA viruses 0.57 40.0 4.25e-01 73.6% 96.3%
3h7lA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 38.0 4.24e-01 71.9% 89.2%
3ptyA02 2.60.120.940 Mainly Beta › Sandwich › Jelly Rolls › EmbC, C-terminal domain, subdomain 2 0.56 43.0 3.80e-01 81.0% 55.6%
2m83A00 2.60.40.2440 Mainly Beta › Sandwich › Immunoglobulin-like › Carbohydrate binding type-21 domain 0.56 40.0 3.91e-01 75.2% 66.2%
3bnwB00 2.40.30.30 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Riboflavin kinase-like 0.55 40.0 3.68e-01 75.2% 96.8%
1sq2N00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 38.0 3.96e-01 73.6% 76.8%
2w5fB01 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.54 39.0 3.69e-01 76.0% 97.4%
4aw7A03 2.60.120.1200 Mainly Beta › Sandwich › Jelly Rolls › 0.54 40.0 4.05e-01 76.9% 76.2%
2x12A01 2.60.40.2010 Mainly Beta › Sandwich › Immunoglobulin-like › 0.54 39.0 3.36e-01 73.6% 72.6%
7nitA06 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.54 41.0 3.68e-01 81.0% 57.6%
5axgA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.53 38.0 3.80e-01 73.6% 75.4%
8owfA01 2.60.40.290 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 37.0 3.88e-01 71.1% 96.4%
2bpa200 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.53 39.0 3.53e-01 77.7% 76.0%
1d1nA00 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.51 38.0 4.14e-01 81.0% 97.0%
2df7A02 2.60.120.660 Mainly Beta › Sandwich › Jelly Rolls › icosahedral virus 0.51 38.0 3.70e-01 80.2% 100.0%
1f0lA03 2.60.40.700 Mainly Beta › Sandwich › Immunoglobulin-like › Diphtheria toxin, receptor-binding domain 0.51 38.0 3.57e-01 83.5% 63.0%
1dglA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.51 39.0 3.17e-01 81.0% 67.1%
2c4xA02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.50 37.0 3.46e-01 78.5% 99.4%
3abzA03 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.50 37.0 3.37e-01 81.0% 57.0%
ECOD (37)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5043609 4081.1.1.0 beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related 0.64 44.0 3.79e-01 87.6% 44.1%
5031981 4081.1.1.7 beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Ribophorin_I 0.63 43.0 3.82e-01 80.2% 48.0%
3970513 1.1.7.87 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › PF25954 0.62 42.0 4.92e-01 72.7% 100.0%
3994570 11.1.5.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f 0.62 45.0 4.24e-01 75.2% 62.8%
5043436 4081.1.1.0 beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related 0.59 42.0 3.70e-01 81.0% 49.7%
5082302 11.1.1.214 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Pur_ac_phosph_N 0.59 43.0 4.47e-01 75.2% 84.5%
3589896 11.1.5.53 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › GBS104-like_Ig 0.59 45.0 3.95e-01 81.0% 62.6%
3888702 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.58 40.0 4.16e-01 71.9% 75.7%
3282461 11.1.5.28 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › DUF1775 0.58 39.0 3.57e-01 79.3% 51.9%
3249968 12.5.1.0 beta sandwiches › Glycosyl hydrolase domain-like › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related 0.58 41.0 3.57e-01 72.7% 62.2%
3547242 12.5.1.2 beta sandwiches › Glycosyl hydrolase domain-like › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related › GPS 0.57 40.0 3.60e-01 71.9% 54.4%
3970369 11.1.5.144 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › T6SS_TssF 0.57 41.0 3.96e-01 75.2% 85.7%
3099010 11.1.5.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f 0.57 38.0 3.83e-01 76.9% 67.2%
3263394 11.1.1.843 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF7034 0.56 42.0 4.15e-01 78.5% 80.8%
3609251 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 36.0 3.63e-01 78.5% 63.3%
2390911 11.1.1.48 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › CelD_N 0.56 38.0 4.19e-01 71.1% 89.1%
3926076 11.1.1.197 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › RHD_dimer 0.56 39.0 4.15e-01 73.6% 81.9%
3527031 11.1.5.7 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › Adap_comp_sub 0.56 39.0 3.96e-01 82.6% 71.7%
3860289 11.1.1.297 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Integrin_A_Ig_2 0.56 44.0 4.06e-01 83.5% 67.7%
3880551 11.1.5.7 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › Adap_comp_sub 0.56 38.0 3.95e-01 82.6% 73.9%
3274204 12.5.1.0 beta sandwiches › Glycosyl hydrolase domain-like › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related 0.56 39.0 3.65e-01 71.1% 64.0%
3277296 11.1.1.843 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF7034 0.56 41.0 4.09e-01 78.5% 80.8%
4373119 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.55 38.0 4.20e-01 72.7% 93.3%
4680309 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 41.0 3.82e-01 78.5% 71.6%
3876897 11.1.1.197 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › RHD_dimer 0.55 39.0 4.00e-01 73.6% 75.0%
4041552 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 36.0 3.77e-01 73.6% 71.8%
3253503 4182.1.1.2 beta sandwiches › Agglutinin HPA-like › Agglutinin HPA-like › Agglutinin HPA-like › H_lectin 0.55 40.0 4.46e-01 79.3% 98.9%
3267027 12.5.1.0 beta sandwiches › Glycosyl hydrolase domain-like › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related 0.54 39.0 3.37e-01 72.7% 63.7%
4624362 3450.1.1.0 alpha arrays › Myosin-binding motif (m-domain) C-terminal subdomain › Myosin-binding motif (m-domain) C-terminal subdomain › Myosin-binding motif (m-domain) C-terminal subdomain 0.54 38.0 3.32e-01 73.6% 46.3%
3394081 10.32.1.195 beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › PAAT-like 0.54 42.0 3.87e-01 82.6% 82.6%
3949948 10.32.1.46 beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Arabino_trans_C 0.54 41.0 3.40e-01 81.0% 51.6%
3965887 11.1.1.457 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › FixH 0.53 38.0 4.02e-01 73.6% 84.8%
3489254 11.1.5.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f 0.53 39.0 3.49e-01 80.2% 51.9%
4014581 4081.1.1.0 beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related 0.53 40.0 3.41e-01 86.0% 47.8%
3290984 223.1.1.0 a+b three layers › Profilin-like › sensor domains › sensor domains 0.52 41.0 3.58e-01 100.0% 56.1%
3711366 11.1.5.7 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › Adap_comp_sub 0.52 36.0 3.67e-01 80.2% 73.9%
3716719 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.50 36.0 3.00e-01 74.4% 50.0%
D4 medium residues 927-978
PDB
D5 medium residues 1298-1318_1500-1528
PDB
D6 medium residues 1529-1652
PDB